(* Generated by JWS Online *)

(* This is an experimental feature of JWS Online. Please report any mistakes.*)

(* Note that the following notable SBML entities or features are not supported in notebook outputyet: *)
    (* Events *)
    (* Constraints *)
    (* Units and UnitDefinitions *)
    (* AlgebraicRules *)
    (* conversionFactors *)

variables = {
CSK\[LetterSpace]cytoplasm[t], Cbp[t], Cbp\[LetterSpace]P[t], Cbp\[LetterSpace]P\[LetterSpace]CSK[t], PTP[t], PTP\[LetterSpace]pY789[t], srca[t], srcc[t], srci[t], srco[t]
};

initialValues = {
CSK\[LetterSpace]cytoplasm[0] == 1.0, Cbp[0] == 1.0, Cbp\[LetterSpace]P[0] == 0.0, Cbp\[LetterSpace]P\[LetterSpace]CSK[0] == 0.0, PTP[0] == 1.0, PTP\[LetterSpace]pY789[0] == 0.0, srca[0] == 0.0, srcc[0] == 0.0, srci[0] == 1.0, srco[0] == 0.0
};

rates = {
CSK\[LetterSpace]translocation, Cbp\[LetterSpace]phosphorylation, PTP\[LetterSpace]phosphorylation, v1, v2, v3, v4
};

rateEquations = {
CSK\[LetterSpace]translocation -> default*(-(kCSKoff*Cbp\[LetterSpace]P\[LetterSpace]CSK[t]) + kCSKon*Cbp\[LetterSpace]P[t]*CSK\[LetterSpace]cytoplasm[t]), Cbp\[LetterSpace]phosphorylation -> default*kCbp*src\[LetterSpace]activity*Cbp[t], PTP\[LetterSpace]phosphorylation -> default*((p3 + kPTP*src\[LetterSpace]activity)*PTP[t] - p2*PTP\[LetterSpace]pY789[t]), v1 -> default*(k2*ptp\[LetterSpace]activity*srci[t] - k1*Cbp\[LetterSpace]P\[LetterSpace]CSK[t]*srco[t]), v2 -> default*(-(p1*srca[t]) + k3*src\[LetterSpace]activity*srco[t]), v3 -> default*(k1*Cbp\[LetterSpace]P\[LetterSpace]CSK[t]*srca[t] - k2*ptp\[LetterSpace]activity*srcc[t]), v4 -> default*k4*p1*srcc[t]
};

parameters = {
Kser -> 1.0, PTP\[LetterSpace]background -> 0.0, acsk0 -> 0.0, k1 -> 1.0, k2 -> 0.8, k3 -> 1.0, k4 -> 10.0, kCSKoff -> 0.01, kCSKon -> 0.1, kCbp -> 1.0, kPTP -> 1.0, p1 -> 0.05, p2 -> 0.15, p3 -> 0.035, rho\[LetterSpace]srca -> 1.0, rho\[LetterSpace]srcc -> 1.0, rho\[LetterSpace]srco -> 0.0, src\[LetterSpace]background -> 0.0001, default -> 1.0
};

assignments = {
ptp\[LetterSpace]activity -> PTP\[LetterSpace]background + Kser*PTP\[LetterSpace]pY789[t], src\[LetterSpace]activity -> src\[LetterSpace]background + rho\[LetterSpace]srca*srca[t] + rho\[LetterSpace]srcc*srcc[t] + rho\[LetterSpace]srco*srco[t]
};

events = {

};

speciesAnnotations = {
CSK\[LetterSpace]cytoplasm[t]->"http://identifiers.org/uniprot/P41240"
};

reactionAnnotations = {

};

units = {
{"time" -> "", "metabolite" -> "", "extent" -> ""}
};

(* Time evolution *)
odes = {
CSK\[LetterSpace]cytoplasm'[t] ==  -1.0*CSK\[LetterSpace]translocation, Cbp'[t] ==  -1.0*Cbp\[LetterSpace]phosphorylation, Cbp\[LetterSpace]P'[t] == 1.0*Cbp\[LetterSpace]phosphorylation -1.0*CSK\[LetterSpace]translocation, Cbp\[LetterSpace]P\[LetterSpace]CSK'[t] == 1.0*CSK\[LetterSpace]translocation , PTP'[t] ==  -1.0*PTP\[LetterSpace]phosphorylation, PTP\[LetterSpace]pY789'[t] == 1.0*PTP\[LetterSpace]phosphorylation , srca'[t] == 1.0*v2 -1.0*v3, srcc'[t] == 1.0*v3 -1.0*v4, srci'[t] == 1.0*v4 -1.0*v1, srco'[t] == 1.0*v1 -1.0*v2
};
timeCourse = NDSolve[Join[odes, initialValues]//.rateEquations//.assignments//.parameters, variables, {t, 0, 100}];

(* Steady-state solution initialized with result of time evolution *)
findRootEquations = odes /.D[_[t],t]->0;
findRootVariables = Partition[Flatten[{#, #/.timeCourse/.t->100} &/@variables],2];
steadyStateVariables = FindRoot[findRootEquations//.rateEquations//.assignments//.parameters, findRootVariables, MaxIterations->100]
fluxes = #//.assignments//.parameters/.steadyStateVariables&/@rateEquations

(* Plot the time evolution of the variables *)
plotTable=Table[Plot[variables[[i]]/.parameters/.timeCourse,{t,0,100},PlotLegends->variables[[i]],PlotRange->Full],{i,Length[variables]}]